miRNA display CGI


Results 1 - 16 of 16 are showing below:
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ID Location Perfect MFE.* RefSeq Acc. strand Start Position R_P_ratio# P value
Predicted miRNA align pattern
12477 3' -61.1 NC_003324.1 + 57041 0.66 0.468382
Target:  5'- uUgGGCugGggagcgGCGGCGAGGgcGCGGa- -3'
miRNA:   3'- gGgCUGugCa-----CGCCGCUCCa-CGCCgu -5'
12477 3' -61.1 NC_003324.1 + 57381 0.66 0.468382
Target:  5'- gCUCGGCGga---GGCGAGG-GCGGCAc -3'
miRNA:   3'- -GGGCUGUgcacgCCGCUCCaCGCCGU- -5'
12477 3' -61.1 NC_003324.1 + 27868 0.66 0.468382
Target:  5'- gUCCGACgACGUugGGCGAGuucaaaGUGUGGCu -3'
miRNA:   3'- -GGGCUG-UGCAcgCCGCUC------CACGCCGu -5'
12477 3' -61.1 NC_003324.1 + 39986 0.66 0.449467
Target:  5'- gUCCGuCGCGccgagcGUGGCGAgGGUGuUGGCGa -3'
miRNA:   3'- -GGGCuGUGCa-----CGCCGCU-CCAC-GCCGU- -5'
12477 3' -61.1 NC_003324.1 + 26351 0.66 0.43098
Target:  5'- gCUCGAagagaGCGgguuucagGCGGaCGAGGcGUGGCAg -3'
miRNA:   3'- -GGGCUg----UGCa-------CGCC-GCUCCaCGCCGU- -5'
12477 3' -61.1 NC_003324.1 + 36131 0.66 0.421906
Target:  5'- gCCCGAUACG-GCGuuGGuaGUGCGGCc -3'
miRNA:   3'- -GGGCUGUGCaCGCcgCUc-CACGCCGu -5'
12477 3' -61.1 NC_003324.1 + 1506 0.67 0.412947
Target:  5'- uUCCGGC-CGgGCcaGCGAGGauccgGCGGCAg -3'
miRNA:   3'- -GGGCUGuGCaCGc-CGCUCCa----CGCCGU- -5'
12477 3' -61.1 NC_003324.1 + 39779 0.67 0.412947
Target:  5'- gCCgGGCACaugGC-GCGAcGUGCGGCAc -3'
miRNA:   3'- -GGgCUGUGca-CGcCGCUcCACGCCGU- -5'
12477 3' -61.1 NC_003324.1 + 18524 0.67 0.38679
Target:  5'- aCCCGAC-CG-GCGGCaAGGU-CGcGCAg -3'
miRNA:   3'- -GGGCUGuGCaCGCCGcUCCAcGC-CGU- -5'
12477 3' -61.1 NC_003324.1 + 27059 0.68 0.353655
Target:  5'- uCgCGACGCGgcguuaccguUGUGGCc-GGUGCGGCu -3'
miRNA:   3'- -GgGCUGUGC----------ACGCCGcuCCACGCCGu -5'
12477 3' -61.1 NC_003324.1 + 30141 0.69 0.315133
Target:  5'- gCCGGuguCGCGaccgGCGGCGugauGGgcgGCGGCAu -3'
miRNA:   3'- gGGCU---GUGCa---CGCCGCu---CCa--CGCCGU- -5'
12477 3' -61.1 NC_003324.1 + 20947 0.69 0.307819
Target:  5'- gCCCGugauuauCACGUGCacguCGAGGaUGCGGCc -3'
miRNA:   3'- -GGGCu------GUGCACGcc--GCUCC-ACGCCGu -5'
12477 3' -61.1 NC_003324.1 + 44585 0.7 0.273201
Target:  5'- -gCGACACG-GCGGCGAGGaacUGCccguuGCAg -3'
miRNA:   3'- ggGCUGUGCaCGCCGCUCC---ACGc----CGU- -5'
12477 3' -61.1 NC_003324.1 + 5645 0.72 0.174013
Target:  5'- gCCGAUgACGcccGCGGCGaAGGuUGCGGCGg -3'
miRNA:   3'- gGGCUG-UGCa--CGCCGC-UCC-ACGCCGU- -5'
12477 3' -61.1 NC_003324.1 + 23926 0.73 0.156845
Target:  5'- gCCGACAUG-GCGuCGAGGUucacGCGGCGa -3'
miRNA:   3'- gGGCUGUGCaCGCcGCUCCA----CGCCGU- -5'
12477 3' -61.1 NC_003324.1 + 47091 1.1 0.000299
Target:  5'- cCCCGACACGUGCGGCGAGGUGCGGCAa -3'
miRNA:   3'- -GGGCUGUGCACGCCGCUCCACGCCGU- -5' 
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Note:
      When operating RNAhybrid, the pipeline first calculates the perfect minimum free energy (Perfect mfe *) of a putative miRNA when the entire putative miRNA binds to a perfectly complementary target site, then it calculates the minimum free energy of RNA duplex (mfe of the miRNA/mRNA duplex), abbreviated as Rd_mfe. An alignment for which the Rd_mfe to its correspondent Perfect mfe ratio (R_P_ratio #) is more than 66% is regarded as a positive alignment as described by Krek et al. (21). The P_value is calculated by RNAhybrid.

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TDL, Institute of Biomedical Science, Academia Sinica, Taipei, Taiwan.
Copyright © 2007 TDL. All rights reserved.